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WO2007028161A3 - Procédés et compositions permettant d’identifier des biomarqueurs utiles au diagnostic et/ou au traitement d’états biologiques - Google Patents

Procédés et compositions permettant d’identifier des biomarqueurs utiles au diagnostic et/ou au traitement d’états biologiques Download PDF

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Publication number
WO2007028161A3
WO2007028161A3 PCT/US2006/034594 US2006034594W WO2007028161A3 WO 2007028161 A3 WO2007028161 A3 WO 2007028161A3 US 2006034594 W US2006034594 W US 2006034594W WO 2007028161 A3 WO2007028161 A3 WO 2007028161A3
Authority
WO
WIPO (PCT)
Prior art keywords
methods
compositions
biomarkers
treatment
diagnosis
Prior art date
Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
Ceased
Application number
PCT/US2006/034594
Other languages
English (en)
Other versions
WO2007028161A2 (fr
Inventor
James C Willey
Erin L Crawford
D Anna N Mullins
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
University of Toledo
Original Assignee
University of Toledo
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by University of Toledo filed Critical University of Toledo
Priority to EP06814191A priority Critical patent/EP1934377B1/fr
Priority to AU2006287190A priority patent/AU2006287190A1/en
Priority to JP2008529373A priority patent/JP2009507229A/ja
Priority to CA002620521A priority patent/CA2620521A1/fr
Priority to AT06814191T priority patent/ATE548467T1/de
Publication of WO2007028161A2 publication Critical patent/WO2007028161A2/fr
Anticipated expiration legal-status Critical
Publication of WO2007028161A3 publication Critical patent/WO2007028161A3/fr
Ceased legal-status Critical Current

Links

Classifications

    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6883—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6809—Methods for determination or identification of nucleic acids involving differential detection
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6883—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material
    • C12Q1/6886—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material for cancer
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/50—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
    • G01N33/68—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving proteins, peptides or amino acids
    • G01N33/6803—General methods of protein analysis not limited to specific proteins or families of proteins
    • G01N33/6842—Proteomic analysis of subsets of protein mixtures with reduced complexity, e.g. membrane proteins, phosphoproteins, organelle proteins
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q2600/00—Oligonucleotides characterized by their use
    • C12Q2600/106—Pharmacogenomics, i.e. genetic variability in individual responses to drugs and drug metabolism
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q2600/00—Oligonucleotides characterized by their use
    • C12Q2600/112—Disease subtyping, staging or classification
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q2600/00—Oligonucleotides characterized by their use
    • C12Q2600/16—Primer sets for multiplex assays
    • Y—GENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
    • Y02—TECHNOLOGIES OR APPLICATIONS FOR MITIGATION OR ADAPTATION AGAINST CLIMATE CHANGE
    • Y02A—TECHNOLOGIES FOR ADAPTATION TO CLIMATE CHANGE
    • Y02A90/00—Technologies having an indirect contribution to adaptation to climate change
    • Y02A90/10—Information and communication technologies [ICT] supporting adaptation to climate change, e.g. for weather forecasting or climate simulation

Landscapes

  • Life Sciences & Earth Sciences (AREA)
  • Chemical & Material Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Organic Chemistry (AREA)
  • Analytical Chemistry (AREA)
  • Molecular Biology (AREA)
  • Physics & Mathematics (AREA)
  • Immunology (AREA)
  • Wood Science & Technology (AREA)
  • Zoology (AREA)
  • Biophysics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Genetics & Genomics (AREA)
  • Biotechnology (AREA)
  • Pathology (AREA)
  • General Health & Medical Sciences (AREA)
  • Microbiology (AREA)
  • Biochemistry (AREA)
  • General Engineering & Computer Science (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Hematology (AREA)
  • Urology & Nephrology (AREA)
  • Biomedical Technology (AREA)
  • Cell Biology (AREA)
  • Food Science & Technology (AREA)
  • Medicinal Chemistry (AREA)
  • General Physics & Mathematics (AREA)
  • Hospice & Palliative Care (AREA)
  • Oncology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)

Abstract

La présente invention concerne des procédés et des compositions permettant d’identifier des biomarqueurs indiquant un état biologique, en particulier des biomarqueurs de facteur de transcription et des gènes pouvant être régulés par de tels biomarqueurs de facteur de transcription. L'invention concerne également l’identification de polymorphismes dans de tels facteurs de transcription et gènes régulés indicatifs de l’état biologique. Les biomarqueurs et les polymorphismes identifiés trouvent une utilisation dans des approches de diagnostic et de traitement, par exemple, dans certains modes de réalisation, on obtient des procédés et des kits permettant de détecter le carcinome bronchogène et les risques associés.
PCT/US2006/034594 2005-09-02 2006-09-05 Procédés et compositions permettant d’identifier des biomarqueurs utiles au diagnostic et/ou au traitement d’états biologiques Ceased WO2007028161A2 (fr)

Priority Applications (5)

Application Number Priority Date Filing Date Title
EP06814191A EP1934377B1 (fr) 2005-09-02 2006-09-05 Procédés permettant d'identifier des biomarqueurs utiles au diagnostic d'états biologiques
AU2006287190A AU2006287190A1 (en) 2005-09-02 2006-09-05 Methods and compositions for identifying biomarkers useful in diagnosis and/or treatment of biological states
JP2008529373A JP2009507229A (ja) 2005-09-02 2006-09-05 生物学的状態の診断及び／又は治療に有用なバイオマーカーを同定するための方法及び組成物
CA002620521A CA2620521A1 (fr) 2005-09-02 2006-09-05 Procedes et compositions permettant d'identifier des biomarqueurs utiles au diagnostic et/ou au traitement d'etats biologiques
AT06814191T ATE548467T1 (de) 2005-09-02 2006-09-05 Verfahren zur identifizierung von biomarkern mit eignung bei der diagnose biologischer zustände

Applications Claiming Priority (6)

Application Number Priority Date Filing Date Title
US71362905P 2005-09-02 2005-09-02
US71362805P 2005-09-02 2005-09-02
US71413805P 2005-09-02 2005-09-02
US60/714,138 2005-09-02
US60/713,629 2005-09-02
US60/713,628 2005-09-02

Publications (2)

Publication Number Publication Date
WO2007028161A2 WO2007028161A2 (fr) 2007-03-08
WO2007028161A3 true WO2007028161A3 (fr) 2008-10-16

Family

ID=37809661

Family Applications (2)

Application Number Title Priority Date Filing Date
PCT/US2006/034595 Ceased WO2007028162A2 (fr) 2005-09-02 2006-09-05 Procédés et compositions permettant d’identifier des biomarqueurs utiles au diagnostic et/ou au traitement d’états biologiques
PCT/US2006/034594 Ceased WO2007028161A2 (fr) 2005-09-02 2006-09-05 Procédés et compositions permettant d’identifier des biomarqueurs utiles au diagnostic et/ou au traitement d’états biologiques

Family Applications Before (1)

Application Number Title Priority Date Filing Date
PCT/US2006/034595 Ceased WO2007028162A2 (fr) 2005-09-02 2006-09-05 Procédés et compositions permettant d’identifier des biomarqueurs utiles au diagnostic et/ou au traitement d’états biologiques

Country Status (7)

Country Link
US (3) US20070092893A1 (fr)
EP (2) EP1934377B1 (fr)
JP (2) JP2009507229A (fr)
AT (1) ATE548467T1 (fr)
AU (2) AU2006287190A1 (fr)
CA (2) CA2620528A1 (fr)
WO (2) WO2007028162A2 (fr)

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US20030186246A1 (en) * 2002-03-28 2003-10-02 Willey James C. Multiplex standardized reverse transcriptase-polymerase chain reacton method for assessment of gene expression in small biological samples
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EP1874962A2 (fr) 2005-04-14 2008-01-09 The Trustees Of Boston University Diagnostic des troubles pulmonaires mettant en oeuvre la prediction de categories
US20070092893A1 (en) * 2005-09-02 2007-04-26 Willey James C Methods and compositions for identifying cancer-related biomarkers
WO2007103541A2 (fr) 2006-03-09 2007-09-13 The Trustees Of Boston University Méthodes de diagnostic et de pronostic pour troubles des poumons utilisant des profils d'expression de gènes de cellules épithéliales nasales
US8765368B2 (en) * 2007-09-17 2014-07-01 The University Of Toledo Cancer risk biomarker
JP2010538680A (ja) * 2007-09-19 2010-12-16 ザ トラスティーズ オブ ボストン ユニバーシティー 肺疾患に対する薬剤開発のための新規経路の同定
WO2009121070A1 (fr) * 2008-03-28 2009-10-01 The Trustees Of Boston University Procédés multifactoriels pour détecter des troubles pulmonaires
WO2009123990A1 (fr) * 2008-03-31 2009-10-08 The University Of Toledo Biomarqueur de risque de cancer
US10236078B2 (en) 2008-11-17 2019-03-19 Veracyte, Inc. Methods for processing or analyzing a sample of thyroid tissue
US8348856B1 (en) 2008-12-16 2013-01-08 Zanetta Malanowska-Stega Simultaneous multiple method out-patient uterus biopsy device and method
EP3360978A3 (fr) 2009-05-07 2018-09-26 Veracyte, Inc. Procédés pour le diagnostic d'affections thyroïdiennes
US8824769B2 (en) 2009-10-16 2014-09-02 General Electric Company Process and system for analyzing the expression of biomarkers in a cell
US8320655B2 (en) 2009-10-16 2012-11-27 General Electric Company Process and system for analyzing the expression of biomarkers in cells
JP2012193121A (ja) * 2011-03-15 2012-10-11 Kose Corp マトリックスメタロプロテアーゼ活性阻害剤
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US9944973B2 (en) 2012-11-26 2018-04-17 The University Of Toledo Methods for standardized sequencing of nucleic acids and uses thereof
WO2014186036A1 (fr) 2013-03-14 2014-11-20 Allegro Diagnostics Corp. Procédés d'évaluation de l'état d'une maladie pulmonaire obstructive chronique (copd)
US11976329B2 (en) 2013-03-15 2024-05-07 Veracyte, Inc. Methods and systems for detecting usual interstitial pneumonia
CN103617256B (zh) * 2013-11-29 2018-01-02 北京诺禾致源科技股份有限公司 待变异检测文件的处理方法及装置
US12297505B2 (en) 2014-07-14 2025-05-13 Veracyte, Inc. Algorithms for disease diagnostics
JP7356788B2 (ja) 2014-11-05 2023-10-05 ベラサイト インコーポレイテッド 機械学習および高次元転写データを使用して経気管支生検における特発性肺線維症を診断するシステムおよび方法
JP6937513B2 (ja) * 2015-09-11 2021-09-22 国立研究開発法人理化学研究所 転写因子結合部位特異的なｄｎａ脱メチル化方法
US10927417B2 (en) 2016-07-08 2021-02-23 Trustees Of Boston University Gene expression-based biomarker for the detection and monitoring of bronchial premalignant lesions
CN110248609A (zh) 2016-12-09 2019-09-17 扎内塔·马拉诺夫斯卡-斯蒂加 刷子活检设备、成套工具和方法

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Also Published As

Publication number Publication date
EP1934377B1 (fr) 2012-03-07
WO2007028161A2 (fr) 2007-03-08
WO2007028162A3 (fr) 2007-07-05
US20070092892A1 (en) 2007-04-26
EP1940860A2 (fr) 2008-07-09
US20070092891A1 (en) 2007-04-26
CA2620528A1 (fr) 2007-03-08
JP2009507229A (ja) 2009-02-19
US20070092893A1 (en) 2007-04-26
AU2006287190A1 (en) 2007-03-08
JP2009506778A (ja) 2009-02-19
CA2620521A1 (fr) 2007-03-08
EP1934377A4 (fr) 2009-04-22
EP1940860A4 (fr) 2009-04-22
EP1934377A2 (fr) 2008-06-25
ATE548467T1 (de) 2012-03-15
EP1940860B1 (fr) 2012-08-08
WO2007028162A2 (fr) 2007-03-08
AU2006287191A1 (en) 2007-03-08

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